IQ-TREE multicore version 1.6.12 for Linux 64-bit built Aug 15 2019
Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor,
Heiko Schmidt, Dominik Schrempf, Michael Woodhams.

Host:    rabi (SSE4.2, 15 GB RAM)
Command: ../../iqtree -s actual_final_alignment.nex -st DNA -spp partfile_final.txt -pre actual_final_alignment.nex -m TESTNEW -bb 1000 -alrt 1000
Seed:    342953 (Using SPRNG - Scalable Parallel Random Number Generator)
Time:    Mon Nov 29 17:31:31 2021
Kernel:  SSE2 - 1 threads (24 CPU cores detected)

HINT: Use -nt option to specify number of threads because your CPU has 24 cores!
HINT: -nt AUTO will automatically determine the best number of threads to use.

Reading partition model file partfile_final.txt ...
Reading alignment file actual_final_alignment.nex ... Nexus format detected
Skipping unknown block (CODONS)...
Skipping unknown block (SETS)...
WARNING: 1 sites contain only gaps or ambiguous characters.
Alignment has 135 sequences with 4156 columns, 1117 distinct patterns
821 parsimony-informative, 199 singleton sites, 3136 constant sites
                                   Gap/Ambiguity  Composition  p-value
   1  Abra_alba_BivAToL_190               16.79%    failed      0.00%
   2  Semele_cordiformis_BivAToL_424      35.37%    passed     97.69%
   3  Macoma_balthica_BivAToL_186          3.97%    failed      0.00%
   4  Asaphis_deflorata_BivAToL_33         3.68%    failed      0.00%
   5  Gari_maculosa_BivAToL_423            4.02%    failed      0.06%
   6  Tagelus_plebeius_BivAToL_245        48.65%    failed      1.08%
   7  D_columbella_IM_2019_1295            3.90%    failed      0.01%
   8  D_columbella_IM_2019_1296            3.90%    failed      0.01%
   9  D_columbella_IM_2019_1297            3.87%    failed      0.01%
  10  D_columbella_IM_2019_1298           77.29%    failed      0.00%
  11  D_columbella_IM_2019_1299           77.29%    failed      0.00%
  12  D_columbella_IM_2019_1300           77.29%    failed      0.00%
  13  D_columbella_IM_2019_1301           77.29%    failed      0.00%
  14  D_columbella_IM_2019_1302           77.29%    failed      0.00%
  15  D_columbella_IM_2019_1304           77.29%    failed      0.00%
  16  D_columbella_IM_2019_1305           77.29%    failed      0.00%
  17  D_columbella_IM_2019_1306           77.29%    failed      0.00%
  18  D_columbella_IM_2019_1307           77.29%    failed      0.00%
  19  D_columbella_IM_2019_1308           77.29%    failed      0.00%
  20  D_columbella_IM_2019_1309           77.29%    failed      0.00%
  21  D_columbella_IM_2019_1310           77.29%    failed      0.00%
  22  D_columbella_IM_2019_1311           77.29%    failed      0.00%
  23  D_columbella_IM_2019_1312           77.29%    failed      0.00%
  24  D_columbella_IM_2019_1313           77.29%    failed      0.00%
  25  D_columbella_IM_2019_1314           77.29%    failed      0.00%
  26  D_columbella_IM_2019_1303           77.29%    failed      0.00%
  27  D_faba_IM_2007_37120                 4.07%    failed      0.43%
  28  D_faba_NSMT_Mo77395                 73.77%    failed      4.17%
  29  D_trifasciatus_IM_2007_35375         4.11%    failed      0.11%
  30  D_trifasciatus_IM_2013_51976         4.11%    failed      0.09%
  31  D_trifasciatus_IM_2013_53555         4.11%    failed      0.09%
  32  D_trifasciatus_IM_2013_53556        77.43%    failed      0.00%
  33  D_trifasciatus_IM_2013_53558        77.43%    failed      0.00%
  34  D_trifasciatus_IM_2013_53553         4.11%    failed      0.07%
  35  D_victoris_IM_2019_1267              3.83%    failed      0.15%
  36  D_victoris_IM_2019_1272              3.83%    failed      0.13%
  37  D_victoris_IM_2019_1274              3.80%    failed      0.11%
  38  D_victoris_IM_2019_1275              3.83%    failed      0.15%
  39  D_victoris_IM_2019_1277             77.31%    failed      0.00%
  40  D_victoris_IM_2019_1279             77.31%    failed      0.00%
  41  D_victoris_IM_2019_1280             77.31%    failed      0.00%
  42  D_victoris_IM_2019_1281             77.31%    failed      0.00%
  43  D_victoris_IM_2019_1282             77.31%    failed      0.00%
  44  D_victoris_IM_2019_1283             77.31%    failed      0.00%
  45  D_victoris_IM_2019_1287              3.83%    failed      0.15%
  46  D_victoris_IM_2019_1288             77.31%    failed      0.00%
  47  D_victoris_IM_2019_1289             77.31%    failed      0.00%
  48  D_victoris_IM_2019_1286             77.31%    failed      0.00%
  49  D_cuneatus_NSMT_Mo77394             74.21%    failed      0.83%
  50  D_siliqua_IM_2013_11265              3.78%    failed      0.02%
  51  D_siliqua_IM_2013_11266              3.78%    failed      0.03%
  52  D_siliqua_IM_2013_11267             35.49%    passed     89.99%
  53  D_siliqua_IM_2013_11268             77.26%    failed      0.00%
  54  D_deltoides_MCZ_378960               4.04%    failed      0.03%
  55  D_kiusiuensis_NSMT_Mo77393          74.57%    failed      2.97%
  56  D_dysoni_isolate_XSFG02             77.36%    failed      0.00%
  57  D_dysoni_isolate_XSFG06             77.36%    failed      0.00%
  58  D_dysoni_isolate_XSFG05             77.36%    failed      0.00%
  59  D_madagascariensis_IM_2019_1237     35.51%    passed     16.61%
  60  D_madagascariensis_IM_2019_1238      3.75%    failed      0.00%
  61  D_madagascariensis_IM_2019_1242      3.71%    failed      0.00%
  62  D_madagascariensis_IM_2019_1269     35.51%    passed     18.24%
  63  D_madagascariensis_IM_2019_1271     77.29%    failed      0.00%
  64  D_madagascariensis_IM_2019_1273     77.29%    failed      0.00%
  65  D_semigranosus_NSMT_Mo77392         73.63%    passed      5.65%
  66  D_spinosus_IM_2013_1211             17.23%    failed      0.00%
  67  D_sordidus_IM_2019_1236             48.75%    failed      2.25%
  68  G_paradoxa_MCZmala_396035A          25.22%    passed     13.90%
  69  G_paradoxa_MCZmala_396035B          24.33%    failed      4.41%
  70  I_brasiliensis_MZUSP_032343         35.71%    passed     80.14%
  71  I_brasiliensis_MZUSP_096969         35.71%    passed     80.14%
  72  D_bipartitus_IM_2019_1223           77.26%    failed      0.00%
  73  D_bipartitus_IM_2019_1226           77.26%    failed      0.00%
  74  D_bipartitus_IM_2019_1227           77.26%    failed      0.00%
  75  D_bipartitus_IM_2019_1231           77.26%    failed      0.00%
  76  D_bipartitus_IM_2019_1246           77.26%    failed      0.00%
  77  D_bipartitus_IM_2019_1248           77.26%    failed      0.00%
  78  D_burnupi_IM_2019_1266               3.27%    failed      0.00%
  79  D_californicus_MCZ_393693           35.37%    passed     90.05%
  80  D_variegatus_KY780365_1             77.31%    failed      1.00%
  81  D_semiestriatus_KY780363_1          77.31%    failed      0.00%
  82  D_vittatus_KY780366_1               77.29%    failed      0.00%
  83  D_vittatus_MCZ_393677               35.35%    passed     68.37%
  84  D_vittatus_MCZ_393680               77.29%    failed      0.00%
  85  D_vittatus_MCZ_393681               77.29%    failed      0.00%
  86  D_vittatus_MCZ_393682               77.29%    failed      0.00%
  87  D_vittatus_MCZ_393683               77.29%    failed      0.00%
  88  D_vittatus_MCZ_393684               77.29%    failed      0.00%
  89  D_vittatus_MCZ_393685               77.29%    failed      0.00%
  90  D_vittatus_MCZ_393678               35.35%    passed     68.37%
  91  D_vittatus_MCZ_393679                2.94%    failed      0.00%
  92  D_trunculus_IM_2009_5201             3.03%    failed      0.00%
  93  D_trunculus_KY780364_1              77.29%    failed      0.21%
  94  D_hanleyanus_FMNH_348278             9.94%    failed      0.67%
  95  D_veruinus_MCZ_378961               77.21%    failed      0.00%
  96  D_veruinus_MCZ_393686               77.21%    failed      0.00%
  97  D_veruinus_MCZ_393687               34.96%    passed     89.37%
  98  D_veruinus_MCZ_393688               77.21%    failed      0.00%
  99  D_veruinus_MCZ_393689               77.21%    failed      0.00%
 100  D_veruinus_MCZ_393690               77.21%    failed      0.00%
 101  D_veruinus_MCZ_378962               34.94%    passed     90.26%
 102  D_denticulatus_IM_2013_7612         35.32%    passed     91.99%
 103  D_denticulatus_IM_2013_7615          3.30%    failed      0.00%
 104  D_denticulatus_IM_2013_70629        35.30%    passed     91.01%
 105  D_denticulatus_IM_2013_71343        77.33%    failed      0.00%
 106  D_denticulatus_IM_2013_7626         77.31%    failed      0.00%
 107  D_denticulatus_IM_2013_70630        77.31%    failed      0.00%
 108  D_denticulatus_IM_2013_70631        35.30%    passed     91.08%
 109  D_denticulatus_IM_2013_71344        35.30%    passed     91.08%
 110  D_denticulatus_IM_2013_71347        77.31%    failed      0.00%
 111  D_denticulatus_IM_2013_7668         77.31%    failed      0.00%
 112  D_denticulatus_IM_2013_70628        77.31%    failed      0.00%
 113  D_denticulatus_IM_2013_70627        77.31%    failed      0.00%
 114  D_denticulatus_IM_2013_71345        77.31%    failed      0.00%
 115  D_denticulatus_IM_2013_71346        77.31%    failed      0.00%
 116  D_denticulatus_IM_2013_70538        35.27%    passed     98.91%
 117  D_striatus_IM_2013_57301             2.96%    failed      0.04%
 118  D_striatus_IM_2013_57303            35.11%    passed     76.89%
 119  D_striatus_IM_2013_57304            77.09%    failed      0.00%
 120  D_striatus_IM_2013_57302            35.11%    passed     74.21%
 121  D_variabilis_MCZ_393936             35.13%    passed     35.70%
 122  D_variabilis_MCZ_393937             35.13%    passed     36.31%
 123  Scissula_similis_BivAToL_7           3.51%    failed      0.00%
 124  Scrobicularia_plana_BivAToL_20       3.99%    failed      0.05%
 125  D_variabilis_MCZ_393939             44.85%    passed     15.62%
 126  D_burnupi_IM_2019_1250              12.80%    failed      0.00%
 127  D_variegatus_BivAToL_129            12.44%    failed      0.00%
 128  D_trunculus_BivAToL_132             12.63%    failed      0.00%
 129  D_veruinus_BivAToL_68               25.53%    failed      0.00%
 130  D_veruinus_BMNH_20070241            40.69%    failed      0.00%
 131  I_brasiliensis_MZUSP_110550         32.75%    failed      0.00%
 132  Semele_purpurascens_BivAToL_55      13.31%    failed      0.00%
 133  Ameritella_versicolor_BivAToL_256   13.02%    failed      0.00%
 134  D_deltoides_BivAToL_88              13.43%    failed      0.00%
 135  D_faba_BMNH_20070242                41.79%    failed      0.00%
WARNING: 69 sequences contain more than 50% gaps/ambiguity
****  TOTAL                               48.78%  112 sequences failed composition chi2 test (p-value<5%; df=3)

Partition file is not in NEXUS format, assuming RAxML-style partition file...
Subset	Type	Seqs	Sites	Infor	Invar	Model	Name
1	DNA	124	423	278	131	GTR	part1
2	DNA	66	1780	138	1602	GTR	part2
3	DNA	47	1405	180	1088	GTR	part3
4	DNA	124	548	225	315	GTR	part4
Degree of missing data: 0.458
Info: multi-threading strategy over partitions

NOTE: D_columbella_IM_2019_1296 is identical to D_columbella_IM_2019_1295 but kept for subsequent analysis
NOTE: D_columbella_IM_2019_1301 is identical to D_columbella_IM_2019_1298 but kept for subsequent analysis
NOTE: D_columbella_IM_2019_1300 is identical to D_columbella_IM_2019_1299 but kept for subsequent analysis
NOTE: D_victoris_IM_2019_1275 is identical to D_victoris_IM_2019_1267 but kept for subsequent analysis
NOTE: D_victoris_IM_2019_1279 is identical to D_victoris_IM_2019_1277 but kept for subsequent analysis
NOTE: D_dysoni_isolate_XSFG06 is identical to D_dysoni_isolate_XSFG02 but kept for subsequent analysis
NOTE: D_bipartitus_IM_2019_1231 is identical to D_bipartitus_IM_2019_1227 but kept for subsequent analysis
NOTE: D_vittatus_MCZ_393683 is identical to D_vittatus_KY780366_1 but kept for subsequent analysis
NOTE: D_veruinus_MCZ_393690 is identical to D_veruinus_MCZ_393686 but kept for subsequent analysis
NOTE: D_denticulatus_IM_2013_71346 is identical to D_denticulatus_IM_2013_71345 but kept for subsequent analysis
NOTE: 11 identical sequences (see below) will be ignored for subsequent analysis
NOTE: D_columbella_IM_2019_1302 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1306 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1307 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1309 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1311 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1313 (identical to D_columbella_IM_2019_1298) is ignored but added at the end
NOTE: D_columbella_IM_2019_1304 (identical to D_columbella_IM_2019_1299) is ignored but added at the end
NOTE: D_columbella_IM_2019_1312 (identical to D_columbella_IM_2019_1299) is ignored but added at the end
NOTE: D_victoris_IM_2019_1287 (identical to D_victoris_IM_2019_1267) is ignored but added at the end
NOTE: D_victoris_IM_2019_1281 (identical to D_victoris_IM_2019_1277) is ignored but added at the end
NOTE: D_victoris_IM_2019_1282 (identical to D_victoris_IM_2019_1277) is ignored but added at the end
Concatenated alignment was printed to actual_final_alignment.nex.uniqueseq.phy

For your convenience alignment with unique sequences printed to actual_final_alignment.nex.uniqueseq.phy


Create initial parsimony tree by phylogenetic likelihood library (PLL)... 0.040 seconds
NOTE: ModelFinder requires 34 MB RAM!
Testing GTR+F+G on supermatrix...
GTR+F+G4 / LnL: -28184.497 / df: 254 / AIC: 56876.994 / AICc: 56910.201 / BIC: 58485.400
Selecting individual models for 4 charsets using BIC...
 No. Model        Score       Charset
   1 GTR+F+I+G4   15200.390   part1
   2 TNe+I+G4     10067.073   part2
   3 TN+F+R4      11990.508   part3
   4 TVM+F+I+G4   16759.286   part4
Full partition model BIC score: 56112.989 (LnL: -26881.639  df:282)
Partition information was printed to actual_final_alignment.nex.best_scheme.nex
Partition information in Raxml format was printed to actual_final_alignment.nex.best_scheme

All model information printed to actual_final_alignment.nex.model.gz
CPU time for ModelFinder: 358.868 seconds (0h:5m:58s)
Wall-clock time for ModelFinder: 359.625 seconds (0h:5m:59s)
Generating 1000 samples for ultrafast bootstrap (seed: 342953)...

NOTE: 16 MB RAM (0 GB) is required!
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -29695.067
Current log-likelihood at step 1: -27396.646
Current log-likelihood at step 2: -27197.793
Current log-likelihood at step 3: -27133.114
Current log-likelihood at step 4: -27089.188
Current log-likelihood at step 5: -27054.849
Current log-likelihood at step 6: -27026.094
Current log-likelihood at step 7: -26999.806
Current log-likelihood at step 8: -26977.351
Current log-likelihood at step 9: -26873.181
Current log-likelihood at step 10: -26789.970
Current log-likelihood at step 11: -26770.134
Current log-likelihood at step 12: -26761.388
Current log-likelihood at step 13: -26757.825
Current log-likelihood at step 14: -26756.231
Current log-likelihood at step 15: -26755.520
Current log-likelihood at step 16: -26755.140
Current log-likelihood at step 17: -26754.941
Current log-likelihood at step 18: -26754.800
Current log-likelihood at step 19: -26754.710
Partition-specific rates:  1.809 0.070 0.241 5.343
Parameters optimization took 18 rounds (10.622 sec)

Computing ML distances based on estimated model parameters... 0.606 sec
WARNING: Some pairwise ML distances are too long (saturated)
Computing BIONJ tree...
0.037 seconds
Log-likelihood of BIONJ tree: -36538.222
--------------------------------------------------------------------
|             INITIALIZING CANDIDATE TREE SET                      |
--------------------------------------------------------------------
Generating 98 parsimony trees... 3.818 second
Computing log-likelihood of 98 initial trees ... 12.732 seconds
Current best score: -26706.240

Do NNI search on 20 best initial trees
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26679.239
Current log-likelihood at step 1: -26677.746
Current log-likelihood at step 2: -26677.310
Current log-likelihood at step 3: -26677.133
Current log-likelihood at step 4: -26676.984
Current log-likelihood at step 5: -26676.853
Current log-likelihood at step 6: -26676.740
Current log-likelihood at step 7: -26676.644
Parameters optimization took 6 rounds (2.142 sec)

BETTER TREE FOUND at iteration 1: -26676.644
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26672.031
Current log-likelihood at step 1: -26671.932
Parameters optimization took 0 rounds (0.252 sec)

BETTER TREE FOUND at iteration 2: -26671.932
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26665.157
Current log-likelihood at step 1: -26664.978
Current log-likelihood at step 2: -26664.896
Parameters optimization took 1 rounds (0.576 sec)

BETTER TREE FOUND at iteration 8: -26664.896
Iteration 10 / LogL: -26665.387 / Time: 0h:0m:55s
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26661.370
Current log-likelihood at step 1: -26661.001
Current log-likelihood at step 2: -26660.841
Current log-likelihood at step 3: -26660.715
Current log-likelihood at step 4: -26660.569
Current log-likelihood at step 5: -26660.418
Current log-likelihood at step 6: -26660.302
Current log-likelihood at step 7: -26660.223
Parameters optimization took 6 rounds (1.941 sec)

BETTER TREE FOUND at iteration 19: -26660.223
Iteration 20 / LogL: -26681.478 / Time: 0h:1m:19s
Finish initializing candidate tree set (20)
Current best tree score: -26660.223 / CPU time: 67.438
Number of iterations: 20
--------------------------------------------------------------------
|               OPTIMIZING CANDIDATE TREE SET                      |
--------------------------------------------------------------------
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26659.606
Current log-likelihood at step 1: -26659.207
Current log-likelihood at step 2: -26659.096
Current log-likelihood at step 3: -26659.034
Parameters optimization took 2 rounds (0.849 sec)

BETTER TREE FOUND at iteration 21: -26659.034
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26658.122
Current log-likelihood at step 1: -26657.989
Current log-likelihood at step 2: -26657.928
Parameters optimization took 1 rounds (0.543 sec)

BETTER TREE FOUND at iteration 29: -26657.928
Iteration 30 / LogL: -26663.400 / Time: 0h:1m:43s (0h:5m:53s left)
BETTER TREE FOUND at iteration 37: -26657.926
Iteration 40 / LogL: -26669.803 / Time: 0h:2m:4s (0h:5m:10s left)
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26657.859
Current log-likelihood at step 1: -26657.753
Current log-likelihood at step 2: -26657.702
Parameters optimization took 1 rounds (0.545 sec)

BETTER TREE FOUND at iteration 50: -26657.702
Iteration 50 / LogL: -26657.702 / Time: 0h:2m:26s (0h:4m:58s left)
Log-likelihood cutoff on original alignment: -26715.008
Estimate model parameters (epsilon = 0.100)
Initial log-likelihood: -26657.683
Current log-likelihood at step 1: -26657.636
Parameters optimization took 0 rounds (0.249 sec)

BETTER TREE FOUND at iteration 56: -26657.636
Iteration 60 / LogL: -26658.196 / Time: 0h:2m:50s (0h:4m:37s left)
Iteration 70 / LogL: -26669.082 / Time: 0h:3m:12s (0h:3m:59s left)
Iteration 80 / LogL: -26657.648 / Time: 0h:3m:33s (0h:3m:25s left)
Iteration 90 / LogL: -26658.213 / Time: 0h:3m:56s (0h:2m:55s left)
BETTER TREE FOUND at iteration 99: -26657.633
Iteration 100 / LogL: -26724.480 / Time: 0h:4m:18s (0h:4m:18s left)
Log-likelihood cutoff on original alignment: -26715.008
NOTE: Bootstrap correlation coefficient of split occurrence frequencies: 0.993
Iteration 110 / LogL: -26657.645 / Time: 0h:4m:40s (0h:3m:51s left)
Iteration 120 / LogL: -26661.904 / Time: 0h:5m:3s (0h:3m:23s left)
Iteration 130 / LogL: -26657.774 / Time: 0h:5m:24s (0h:2m:55s left)
Iteration 140 / LogL: -26686.621 / Time: 0h:5m:46s (0h:2m:29s left)
Iteration 150 / LogL: -26657.757 / Time: 0h:6m:8s (0h:2m:3s left)
Log-likelihood cutoff on original alignment: -26705.709
Iteration 160 / LogL: -26658.003 / Time: 0h:6m:32s (0h:1m:38s left)
Iteration 170 / LogL: -26668.407 / Time: 0h:6m:55s (0h:1m:13s left)
Iteration 180 / LogL: -26657.784 / Time: 0h:7m:15s (0h:0m:48s left)
Iteration 190 / LogL: -26725.452 / Time: 0h:7m:37s (0h:0m:24s left)
Iteration 200 / LogL: -26657.746 / Time: 0h:7m:57s (0h:0m:0s left)
Log-likelihood cutoff on original alignment: -26705.709
NOTE: Bootstrap correlation coefficient of split occurrence frequencies: 0.996
TREE SEARCH COMPLETED AFTER 200 ITERATIONS / Time: 0h:7m:58s

--------------------------------------------------------------------
|                    FINALIZING TREE SEARCH                        |
--------------------------------------------------------------------
Performs final model parameters optimization
Estimate model parameters (epsilon = 0.010)
Initial log-likelihood: -26657.633
Current log-likelihood at step 1: -26657.586
Current log-likelihood at step 2: -26657.544
Current log-likelihood at step 3: -26657.506
Current log-likelihood at step 4: -26657.467
Current log-likelihood at step 5: -26657.412
Current log-likelihood at step 6: -26657.379
Current log-likelihood at step 7: -26657.349
Current log-likelihood at step 8: -26657.323
Current log-likelihood at step 9: -26657.297
Current log-likelihood at step 10: -26657.274
Current log-likelihood at step 11: -26657.250
Current log-likelihood at step 12: -26657.226
Current log-likelihood at step 13: -26657.199
Current log-likelihood at step 14: -26657.179
Current log-likelihood at step 15: -26657.163
Current log-likelihood at step 16: -26657.142
Current log-likelihood at step 17: -26657.127
Current log-likelihood at step 18: -26657.112
Current log-likelihood at step 19: -26657.099
Current log-likelihood at step 20: -26657.086
Current log-likelihood at step 21: -26657.074
Current log-likelihood at step 22: -26657.063
Current log-likelihood at step 23: -26657.051
Current log-likelihood at step 24: -26657.033
Current log-likelihood at step 25: -26657.022
Current log-likelihood at step 26: -26657.012
Partition-specific rates:  2.074 0.063 0.240 5.165
Parameters optimization took 25 rounds (6.768 sec)

BEST SCORE FOUND : -26657.012

Testing tree branches by SH-like aLRT with 1000 replicates...
7.189 sec.
Creating bootstrap support values...
Split supports printed to NEXUS file actual_final_alignment.nex.splits.nex
Total tree length: 4.833

Total number of iterations: 200
CPU time used for tree search: 464.084 sec (0h:7m:44s)
Wall-clock time used for tree search: 465.431 sec (0h:7m:45s)
Total CPU time used: 490.793 sec (0h:8m:10s)
Total wall-clock time used: 492.409 sec (0h:8m:12s)

Computing bootstrap consensus tree...
Reading input file actual_final_alignment.nex.splits.nex...
124 taxa and 995 splits.
Consensus tree written to actual_final_alignment.nex.contree
Reading input trees file actual_final_alignment.nex.contree
Log-likelihood of consensus tree: -26657.306

Analysis results written to: 
  IQ-TREE report:                actual_final_alignment.nex.iqtree
  Maximum-likelihood tree:       actual_final_alignment.nex.treefile
  Likelihood distances:          actual_final_alignment.nex.mldist
  Best partitioning scheme:      actual_final_alignment.nex.best_scheme.nex
           in RAxML format:      actual_final_alignment.nex.best_scheme

Ultrafast bootstrap approximation results written to:
  Split support values:          actual_final_alignment.nex.splits.nex
  Consensus tree:                actual_final_alignment.nex.contree
  Screen log file:               actual_final_alignment.nex.log

Date and Time: Mon Nov 29 17:45:44 2021
